Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,037,410 G→C 9.6% F59L (TTC→TTG)  PP_2649 ← LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,037,4100GC 9.6% 148.6 / 5.4 52F59L (TTC→TTG) PP_2649LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (25/22);  new base C (2/3);  total (27/25)
Fisher's exact test for biased strand distribution p-value = 6.62e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.63e-01

GCCCCCACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTGGCGGGCGTGCAGGCGG  >  NC_002947/3037264‑3037557
                                                                                                                                                  |                                                                                                                                                    
gCCCCCACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGaa                                                                                                                                                    <  8:293049/149‑1 (MQ=255)
 cccccACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGAAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGaa                                                                                                                                                    >  4:168932/1‑148 (MQ=255)
   cccACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCTGTTCAAccg                                                                                                                                                 >  2:91392/1‑147 (MQ=255)
   cccACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCTGTTCAAccg                                                                                                                                                 >  4:173367/1‑147 (MQ=255)
     cACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCa                                                                                                                                               >  8:266676/1‑149 (MQ=255)
          ccAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCTGTTCAACCGCAccaac                                                                                                                                          <  7:187103/149‑5 (MQ=255)
          ccAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCTGTTCAACCGCAccaac                                                                                                                                          <  3:199073/149‑5 (MQ=255)
          ccAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCTGTTCAACCGCAccaa                                                                                                                                           <  3:173367/148‑4 (MQ=255)
           cAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGGGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGc                                                                                                                                         <  5:44447/149‑1 (MQ=255)
             gccggccgCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACa                                                                                                                                                  >  4:294303/1‑138 (MQ=255)
             gccggccgCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACa                                                                                                                                                  <  3:294303/138‑1 (MQ=255)
                ggccgCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAg                                                                                                                                    <  7:273549/149‑1 (MQ=255)
                  ccgccgACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAggt                                                                                                                                  <  5:101815/149‑1 (MQ=255)
                       gACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGttt                                                                                                                             >  4:31720/1‑149 (MQ=255)
                          cccACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAg                                                                                                                                                 >  8:175723/1‑126 (MQ=255)
                          cccACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAg                                                                                                                                                 <  7:175723/126‑1 (MQ=255)
                                       gCATCCAGATCGTTCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGTATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAgg                                                                                                              <  3:239810/148‑1 (MQ=255)
                                          tCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAg                                                                                                               <  8:347231/144‑1 (MQ=255)
                                          tCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAg                                                                                                               >  7:347231/1‑144 (MQ=255)
                                              gATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTg                                                                                                      <  3:168932/149‑1 (MQ=255)
                                                  gTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCAc                                                                                                  <  5:19055/149‑1 (MQ=255)
                                                        cAGGTTGGCGATATCGGTCTGCTACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTTGTGCGGTTGAACAGCACTGTGCCGTAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCt                                                                                            <  5:41709/149‑1 (MQ=255)
                                                        cAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCt                                                                                            >  3:165912/1‑149 (MQ=255)
                                                                           tGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACg‑ctgct                                                                        >  7:189979/1‑149 (MQ=255)
                                                                                cAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTtgctg                                                                   >  7:121486/1‑149 (MQ=255)
                                                                                   gcgtgcgtAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCa                                                                                                   >  3:48646/1‑115 (MQ=255)
                                                                                   gcgtgcgtAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCa                                                                                                   <  4:48646/115‑1 (MQ=255)
                                                                                   gcgtgcgtAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCAc                                                                >  5:224605/1‑149 (MQ=255)
                                                                                       gcgtAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGCGTAAGCCCGACG‑CTGCTTGCTGCACCGag                                                            >  8:39953/1‑149 (MQ=255)
                                                                                           aGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCg                                                                                                                           <  1:286720/83‑1 (MQ=255)
                                                                                           aGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCg                                                                                                                           >  2:286720/1‑83 (MQ=255)
                                                                                              ggATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCagcgag                                                     <  6:224605/149‑1 (MQ=255)
                                                                                                aTGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCagcgagcg                                                   >  3:204153/1‑149 (MQ=255)
                                                                                                   gcgcAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTg                                                <  4:165912/149‑1 (MQ=255)
                                                                                                    cgcAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTCGCTGCTCGGTGCagcaagca                                                   <  5:105713/145‑2 (MQ=255)
                                                                                                    cgcAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTCGCTGCTCGGTGCagcaagca                                                   >  6:105713/1‑144 (MQ=255)
                                                                                                     gcAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTaa                                                                                      >  5:20109/1‑110 (MQ=255)
                                                                                                     gcAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTaa                                                                                      <  6:20109/110‑1 (MQ=255)
                                                                                                     gcAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCt                                              >  6:269483/1‑149 (MQ=255)
                                                                                                      cAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTc                                             >  2:75138/1‑149 (MQ=255)
                                                                                                            ccGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACATCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCaa                                       <  8:189979/149‑1 (MQ=255)
                                                                                                             cggcggCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACGCCTGCTCGCTGCTCGGTGCagcaagcag                                                  <  1:203789/138‑3 (MQ=255)
                                                                                                             cggcggCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTCGCTGCTCGGTGCagcaagcag                                                  >  2:203789/1‑135 (MQ=255)
                                                                                                                 ggcCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGa                                  <  3:31720/149‑1 (MQ=255)
                                                                                                                   ccGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATc                                <  8:121486/149‑1 (MQ=255)
                                                                                                                        ggCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATcaac                             >  2:44411/1‑147 (MQ=255)
                                                                                                                         gCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAg                          >  8:35498/1‑149 (MQ=255)
                                                                                                                               ggCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAgg                    >  2:365548/1‑149 (MQ=255)
                                                                                                                                      gTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTggcggg             >  4:175234/1‑149 (MQ=255)
                                                                                                                                         ggTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTGGCGGGCGt          >  4:139216/1‑149 (MQ=255)
                                                                                                                                              ggTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTGGCGGGCGTGCAgg     <  3:279611/149‑1 (MQ=255)
                                                                                                                                               gTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTGGCGGGCGTGCAGGc    >  7:307297/1‑149 (MQ=255)
                                                                                                                                                  gAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTGGCGGGCGTGCAGGCgg  <  3:139216/148‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                                    
GCCCCCACTGCCAGCCGGCCGCCGACCCCACGCAGGATTGCATCCAGATCGTGCCGCAGGTTGGCGATATCGGTCTGCAACAGGCGTGCGTAGCGGATGGCGCAGTGCCCGGCGGCCGTGGGCTCCAGGCCTCGGTTGGTGCGGTTGAACAGCACGGTGCCGAAGGTGGTTTCGATTTCCTGCAAGGCCTTGCTGGCACCAGGCTGGGTAAGCCCGACG‑CTGCTTGCTGCACCGAGCAGCGAGCGGTGCTCGTCCAACTCGATCAACAAGCGCAGGTGGCGGGCGTGCAGGCGG  >  NC_002947/3037264‑3037557

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑